Question: Mapping sequence features to alignments
0
gravatar for oliwindram
3.4 years ago by
oliwindram10
United Kingdom
oliwindram10 wrote:

 

Hi I am trying to work out how to relate basepair position information in unaligned sequence to aligned sequences in pairwiseAlignment objects. So if I have a feature in my initial unaligned pattern or subject sequence at 100-110 bp I would like to be able to identify where this in the aligned sequence taking into account any indels. Is there an easy way of getting this information or do I have to do some weird loop that scans through indels iteratively to calculate the new feature location?

 

Cheers

pairwisealignment indel • 384 views
ADD COMMENTlink modified 3.4 years ago by Hervé Pagès ♦♦ 14k • written 3.4 years ago by oliwindram10
Answer: Mapping sequence features to alignments
0
gravatar for Hervé Pagès
3.4 years ago by
Hervé Pagès ♦♦ 14k
United States
Hervé Pagès ♦♦ 14k wrote:

Hi,

Would the answer given here help you?

pairwiseAlignments coordinate mapping?

Cheers,

H.

ADD COMMENTlink written 3.4 years ago by Hervé Pagès ♦♦ 14k
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